tetano
Editor, Senior Moderator
Infect Genet Evol. 2013 May 7. pii: S1567-1348(13)00183-4. doi: 10.1016/j.meegid.2013.04.034. [Epub ahead of print]
Whole-genome, deep pyrosequencing analysis of a duck influenza A virus evolution in swine cells.
Bourret V, Croville G, Mariette J, Klopp C, Bouchez O, Tiley L, Gu?rin JL.
Source
Department of Veterinary Medicine, University of Cambridge, Madingley Road, Cambridge CB3 0ES, UK; Universit? de Toulouse, INP, ENVT, 31076 Toulouse, France; INRA, UMR 1225, IHAP, 31076 Toulouse, France. Electronic address: v.bourret@envt.fr.
Abstract
We studied the sub-population level evolution of a duck influenza A virus isolate during passage in swine tracheal cells. The complete genomes of the A/mallard/Netherlands/10-Nmkt/1999 strain and its swine cell-passaged descendent were analysed by 454 pyrosequencing with coverage depth ranging from several hundred to several thousand reads at any point. This allowed characterization of defined minority sub-populations of gene segments 2, 3, 4, 5, 7, and 8 present in the original isolate. These minority sub-populations ranged between 9.5% (for segment 2) and 46% (for segment 4) of their respective gene segments in the parental stock. They were likely contributed by one or more viruses circulating within the same area, at the same period and in the same or a sympatric host species. The minority sub-populations of segments 3, 4, and 5 became extinct upon viral passage in swine cells, whereas the minority sub-populations of segments 2, 7 and 8 completely replaced their majority counterparts. The swine cell-passaged virus was therefore a three-segment reassortant and also harboured point mutations in segments 3 and 4. The adapted virus was more homogenous than the parental stock, with only 17 minority single nucleotide polymorphisms present above 5% frequency across the whole genome. Though limited here to one sample, this deep sequencing approach highlights the evolutionary versatility of influenza viruses whereby they exploit their genetic diversity, predilection for mixed infection and reassortment to adapt to a new host environmental niche.
Copyright ? 2013. Published by Elsevier B.V.
PMID:
23660486
[PubMed - as supplied by publisher]
http://www.ncbi.nlm.nih.gov/pubmed/23660486
Whole-genome, deep pyrosequencing analysis of a duck influenza A virus evolution in swine cells.
Bourret V, Croville G, Mariette J, Klopp C, Bouchez O, Tiley L, Gu?rin JL.
Source
Department of Veterinary Medicine, University of Cambridge, Madingley Road, Cambridge CB3 0ES, UK; Universit? de Toulouse, INP, ENVT, 31076 Toulouse, France; INRA, UMR 1225, IHAP, 31076 Toulouse, France. Electronic address: v.bourret@envt.fr.
Abstract
We studied the sub-population level evolution of a duck influenza A virus isolate during passage in swine tracheal cells. The complete genomes of the A/mallard/Netherlands/10-Nmkt/1999 strain and its swine cell-passaged descendent were analysed by 454 pyrosequencing with coverage depth ranging from several hundred to several thousand reads at any point. This allowed characterization of defined minority sub-populations of gene segments 2, 3, 4, 5, 7, and 8 present in the original isolate. These minority sub-populations ranged between 9.5% (for segment 2) and 46% (for segment 4) of their respective gene segments in the parental stock. They were likely contributed by one or more viruses circulating within the same area, at the same period and in the same or a sympatric host species. The minority sub-populations of segments 3, 4, and 5 became extinct upon viral passage in swine cells, whereas the minority sub-populations of segments 2, 7 and 8 completely replaced their majority counterparts. The swine cell-passaged virus was therefore a three-segment reassortant and also harboured point mutations in segments 3 and 4. The adapted virus was more homogenous than the parental stock, with only 17 minority single nucleotide polymorphisms present above 5% frequency across the whole genome. Though limited here to one sample, this deep sequencing approach highlights the evolutionary versatility of influenza viruses whereby they exploit their genetic diversity, predilection for mixed infection and reassortment to adapt to a new host environmental niche.
Copyright ? 2013. Published by Elsevier B.V.
PMID:
23660486
[PubMed - as supplied by publisher]
http://www.ncbi.nlm.nih.gov/pubmed/23660486